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mmu_circEpb41l4a_228
Basic information of circular RNA
PanCircBase ID:
mmu_circEpb41l4a_228
mm39_Chr. Position ID:
chr18|33931743|33935613|-
Gene name:
Epb41l4a
Transcript:
ENSMUST00000025234.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
22,21,20
Exon/intron offsets:
0,2880,3822
Genomic length:
3870
Exon/intron sizes in nt:
111,69,48
Flanking exon/introns:
chr18:33931642-33931743|chr18:33935613-33943271
Splice length:
228
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAGAAGTCCTGACATCCAAGCAAAAGAAGAACTGTGGAAGCACATCCAGAAGGAGCTTGTGGACCCATCTGGACTGTCAGAAGAGCAGCTGAAGGAGATCCCGTACACTAAAGTAGAGACTCAGGGTGACCCGGTCCGCATCCGGCATTCTCATTCCCCGCGGAGTTACCGGCAGTACCGAAGATCCCAGTGTTCAGACGGAGAACGATCCGTTCTCTCGGAAGTGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCGGCATTCTCATTCCCC
59.89
TGACAGTCCAGATGGGTCCA
60.18
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCGGCATTCTCATTCCCC
59.89
GACAGTCCAGATGGGTCCAC
59.75
167
PCR template sequence:
ACCCGGTCCGCATCCGGCATTCTCATTCCCCGCGGAGTTACCGGCAGTACCGAAGATCCCAGTGTTCAGACGGAGAACGATCCGTTCTCTCGGAAGTGAAAAGAAGTCCTGACATCCAAGCAAAAGAAGAACTGTGGAAGCACATCCAGAAGGAGCTTGTGGACCCATCTGGACTGTCAGAAGAGCAGCTGAAGGAGATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-125b-5p(1), mmu-miR-125a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCGGAAGTGAAAAGAAGTCCTGAC
siRNA sets
GACTTCTTTTCACTTCCGA, AGGACTTCTTTTCACTTCC, ACTTCTTTTCACTTCCGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.394412892
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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